miRNA display CGI


Results 1 - 20 of 67 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
23857 3' -54 NC_005261.1 + 74515 0.66 0.953113
Target:  5'- gCGGCGccgGGGCc-AUGGcGCUUGGGCGc -3'
miRNA:   3'- -GCCGUua-UCCGucUACU-CGAGCCUGC- -5'
23857 3' -54 NC_005261.1 + 50998 0.72 0.688061
Target:  5'- gCGGCGcGUGGGCGcGGcggGAGCUCGG-CGa -3'
miRNA:   3'- -GCCGU-UAUCCGU-CUa--CUCGAGCCuGC- -5'
23857 3' -54 NC_005261.1 + 2532 0.72 0.708595
Target:  5'- gCGGCAGUAGGCcgccagcgccgcGGcgcUGGGCgCGGGCGu -3'
miRNA:   3'- -GCCGUUAUCCG------------UCu--ACUCGaGCCUGC- -5'
23857 3' -54 NC_005261.1 + 84109 0.72 0.708595
Target:  5'- gGGCGggAUGGGgAGggGGGCagCGGGCGg -3'
miRNA:   3'- gCCGU--UAUCCgUCuaCUCGa-GCCUGC- -5'
23857 3' -54 NC_005261.1 + 2814 0.71 0.718765
Target:  5'- gGGCc--GGGCGGccccagcccGAGCUCGGGCGg -3'
miRNA:   3'- gCCGuuaUCCGUCua-------CUCGAGCCUGC- -5'
23857 3' -54 NC_005261.1 + 14130 0.71 0.718765
Target:  5'- gGGCGGUGGGCAGuc--GCUCgcgaGGACGc -3'
miRNA:   3'- gCCGUUAUCCGUCuacuCGAG----CCUGC- -5'
23857 3' -54 NC_005261.1 + 97591 0.71 0.718765
Target:  5'- gGGCGGagcGGGCGGAgcGGGCggagCGGGCGg -3'
miRNA:   3'- gCCGUUa--UCCGUCUa-CUCGa---GCCUGC- -5'
23857 3' -54 NC_005261.1 + 24118 0.71 0.748774
Target:  5'- gGGCccgAGGCGGGgguggGGGCUgGGugGg -3'
miRNA:   3'- gCCGuuaUCCGUCUa----CUCGAgCCugC- -5'
23857 3' -54 NC_005261.1 + 12362 0.71 0.758577
Target:  5'- gCGGCAAccGGCGcgucuucgauGGUGAGCUCgaGGAUGg -3'
miRNA:   3'- -GCCGUUauCCGU----------CUACUCGAG--CCUGC- -5'
23857 3' -54 NC_005261.1 + 9628 0.72 0.688061
Target:  5'- aGGCGGggguggGGGCuGGGUGGGCggggcccacUCGGGCGg -3'
miRNA:   3'- gCCGUUa-----UCCG-UCUACUCG---------AGCCUGC- -5'
23857 3' -54 NC_005261.1 + 97702 0.72 0.676679
Target:  5'- gGGCGGUGgggagacGGCGGGUG-GCcCGGGCGg -3'
miRNA:   3'- gCCGUUAU-------CCGUCUACuCGaGCCUGC- -5'
23857 3' -54 NC_005261.1 + 35692 0.72 0.676679
Target:  5'- cCGGCGagccccgGUGGGCcGG-GGGCUCGGugGc -3'
miRNA:   3'- -GCCGU-------UAUCCGuCUaCUCGAGCCugC- -5'
23857 3' -54 NC_005261.1 + 1014 0.8 0.288613
Target:  5'- gGGCGggGGGCGGGUGGGCUuuugcggagggcggCGGGCGg -3'
miRNA:   3'- gCCGUuaUCCGUCUACUCGA--------------GCCUGC- -5'
23857 3' -54 NC_005261.1 + 109860 0.76 0.473543
Target:  5'- gCGGCuccuggGGGCAGcgGGGCccgCGGGCGg -3'
miRNA:   3'- -GCCGuua---UCCGUCuaCUCGa--GCCUGC- -5'
23857 3' -54 NC_005261.1 + 24395 0.75 0.49292
Target:  5'- uCGGCGGcgGGGCGGuccuggGGGCUCGGAUc -3'
miRNA:   3'- -GCCGUUa-UCCGUCua----CUCGAGCCUGc -5'
23857 3' -54 NC_005261.1 + 110806 0.75 0.502745
Target:  5'- gGGCGAggaggcggGGGCGGAcgGGGCcgCGGACGa -3'
miRNA:   3'- gCCGUUa-------UCCGUCUa-CUCGa-GCCUGC- -5'
23857 3' -54 NC_005261.1 + 16160 0.74 0.573583
Target:  5'- cCGGCA--GGGCAGuaggGGGCgCGGGCGu -3'
miRNA:   3'- -GCCGUuaUCCGUCua--CUCGaGCCUGC- -5'
23857 3' -54 NC_005261.1 + 59612 0.74 0.594308
Target:  5'- gCGGCGc--GGCGGAUGAGCgccaGGACc -3'
miRNA:   3'- -GCCGUuauCCGUCUACUCGag--CCUGc -5'
23857 3' -54 NC_005261.1 + 97744 0.73 0.625591
Target:  5'- uGGCAG-GGGCGGGgcGGGCUCGG-CGg -3'
miRNA:   3'- gCCGUUaUCCGUCUa-CUCGAGCCuGC- -5'
23857 3' -54 NC_005261.1 + 12771 0.73 0.646485
Target:  5'- gCGGCGGU-GGCGGG-GGGCUCGucGGCGa -3'
miRNA:   3'- -GCCGUUAuCCGUCUaCUCGAGC--CUGC- -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.